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Sample GSM1504958 Query DataSets for GSM1504958
Status Public on Sep 17, 2014
Title Liver_53
Sample type genomic
Source name severely obese patient_liver
Organism Homo sapiens
Characteristics subject status: severely obese patient
subject age: 48
gender: female
bmi: 40.581
tissue: liver
Extracted molecule genomic DNA
Extraction protocol genomic DNA was extracted and purified from liver samples using the AllPrep DNA/RNA/Protein Mini kit (QIAgen, Hilden, Germany) according to standard instructions
Label Cy5 and Cy3
Label protocol Standard Illumina Protocol
Hybridization protocol bisulphite converted DNA was amplified, fragmented and hybridised to Illumina Infinium Human Methylation450K Beadchip using standard Illumina protocol
Scan protocol Arrays were imaged using HiScan Reader using standard recommended Illumina scanner setting
Description Liver sample of Morbidly patient
Data processing SWAN Normalization and M-value transformation, using minfi (v.1.8.9) and R (v.3.0.2)
Submission date Sep 16, 2014
Last update date Sep 17, 2014
Contact name Lude Franke
Organization name UMCG
Department Genetics
Street address Hanzeplein 1
City Groningen
State/province Please Select
ZIP/Postal code 9713 GZ
Country Netherlands
Platform ID GPL13534
Series (2)
GSE61446 Epigenome analysis of the human liver
GSE61454 DNA methylation from severely obese samples in liver, muscle, visceral adipose tissue and subcutaneous adipose samples

Data table header descriptions
VALUE SWAN Normalized M-value

Data table
cg00001349 0.80345372
cg00001583 0.082768882
cg00002028 0.041313956
cg00002719 0.337338793
cg00002837 0.49379376
cg00003202 0.033400795
cg00003287 0.154104067
cg00007036 0.962498835
cg00007898 0.040724659
cg00008004 0.177708632
cg00008647 0.088352106
cg00009292 0.095374935
cg00011717 0.954972407
cg00014168 0.511252322
cg00015286 0.796537554
cg00016238 0.838370669
cg00017221 0.101419103
cg00017437 0.073891293
cg00021123 0.907249941
cg00021576 0.08975965

Total number of rows: 399654

Table truncated, full table size 8943 Kbytes.

Supplementary file Size Download File type/resource
GSM1504958_5822791019_R06C01_Grn.idat.gz 4.0 Mb (ftp)(http) IDAT
GSM1504958_5822791019_R06C01_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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